SMTL ID : 6wo5.2 (1 other biounit)

Structure of Hepatitis C Virus Envelope Glycoprotein E2 core from genotype 1a bound to neutralizing antibody 212.1.1 and non neutralizing antibody E1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.62 Å

Oligo State

hetero-1-1-1-1-1-mer

Ligands

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 4 residues within 4Å: Chain C: Q.62, Q.65 Chain E: N.14, Y.96 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Q.65

1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.2: 6 residues within 4Å: Chain D: S.30, N.31, Y.32, Y.67 Chain E: N.21, E.22 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:Y.67

3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 4 residues within 4Å: Chain B: T.17, N.115, R.116, T.117 No protein-ligand interaction detected (PLIP) NAG.4: 4 residues within 4Å: Chain A: A.32, V.103 Chain E: V.107, N.109 3 PLIP interactions: 2 interactions with chain E, 1 interactions with chain A Hydrophobic interactions: E:V.107, A:A.32 Hydrogen bonds: E:N.109 NAG.5: 5 residues within 4Å: Chain E: N.125, S.126, T.127, F.129, K.131 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:N.125, E:T.127, E:T.127

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tzarum, N. et al., An alternate conformation of HCV E2 neutralizing face as an additional vaccine target. Sci Adv (2020)

Release Date

2020-08-19

Peptides

Fab E1 heavy chain: A
Fab E1 light chain: B
Fab 212.1.1 heavy chain: C
Fab 212.1.1 light chain: D
Envelope glycoprotein E2: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
G

D
I

E
F

Fab E1 heavy chain

Fab E1 light chain

Fab 212.1.1 heavy chain

Fab 212.1.1 light chain

Envelope glycoprotein E2

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